{"id":"https://openalex.org/W7214317316","doi":"https://doi.org/10.64898/2026.09.18.752766","title":"Putative Cyclospora cayetanensis detection in wastewater metagenomic datasets","display_name":"Putative Cyclospora cayetanensis detection in wastewater metagenomic datasets","publication_year":2026,"publication_date":"2026-09-24","ids":{"openalex":"https://openalex.org/W7214317316","doi":"https://doi.org/10.64898/2026.09.18.752766"},"language":"en","primary_location":{"id":"doi:10.64898/2026.09.18.752766","doi":"https://doi.org/10.64898/2026.09.18.752766","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.18.752766","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/24/2026.09.18.752766.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"volume":null,"type":"preprint","is_traditional":true,"indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/24/2026.09.18.752766.full.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5079712955","display_name":"Nicholas R. Minor","orcid":"https://orcid.org/0000-0003-2929-8229","observed_orcids":["https://orcid.org/0000-0003-2929-8229"]},"institutions":[{"id":"https://openalex.org/I135310074","display_name":"University of Wisconsin\u2013Madison","ror":"https://ror.org/01y2jtd41","country_code":"US","type":"education","lineage":["https://openalex.org/I135310074"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Nicholas R. Minor","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA"],"raw_orcid":"https://orcid.org/0000-0003-2929-8229","affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","institution_ids":["https://openalex.org/I135310074"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060271320","display_name":"William K. Gardner","orcid":null,"observed_orcids":[]},"institutions":[{"id":"https://openalex.org/I135310074","display_name":"University of Wisconsin\u2013Madison","ror":"https://ror.org/01y2jtd41","country_code":"US","type":"education","lineage":["https://openalex.org/I135310074"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William K. Gardner","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","institution_ids":["https://openalex.org/I135310074"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002859125","display_name":"Marc C. Johnson","orcid":"https://orcid.org/0000-0002-6431-7133","observed_orcids":["https://orcid.org/0000-0002-6431-7133"]},"institutions":[{"id":"https://openalex.org/I76835614","display_name":"University of Missouri","ror":"https://ror.org/02ymw8z06","country_code":"US","type":"education","lineage":["https://openalex.org/I76835614"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Marc C. Johnson","raw_affiliation_strings":["Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA","Department of Molecular Microbiology and Immunology, University of Missouri School of Medicine, Columbia, MO 65211, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Christopher S. Bond Life Sciences Center, University of Missouri, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]},{"raw_affiliation_string":"Department of Molecular Microbiology and Immunology, University of Missouri School of Medicine, Columbia, MO 65211, USA","institution_ids":["https://openalex.org/I76835614"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039546368","display_name":"Shelby L. O\u2019Connor","orcid":"https://orcid.org/0000-0003-0183-5010","observed_orcids":["https://orcid.org/0000-0003-0183-5010"]},"institutions":[{"id":"https://openalex.org/I135310074","display_name":"University of Wisconsin\u2013Madison","ror":"https://ror.org/01y2jtd41","country_code":"US","type":"education","lineage":["https://openalex.org/I135310074"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Shelby L. O\u2019Connor","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","institution_ids":["https://openalex.org/I135310074"]},{"raw_affiliation_string":"Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA","institution_ids":["https://openalex.org/I135310074"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044794320","display_name":"David H. O\u2019Connor","orcid":"https://orcid.org/0000-0003-2139-470X","observed_orcids":["https://orcid.org/0000-0003-2139-470X","https://orcid.org/0000-0002-3532-8351"]},"institutions":[{"id":"https://openalex.org/I135310074","display_name":"University of Wisconsin\u2013Madison","ror":"https://ror.org/01y2jtd41","country_code":"US","type":"education","lineage":["https://openalex.org/I135310074"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David H. O\u2019Connor","raw_affiliation_strings":["Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Pathology and Laboratory Medicine, University of Wisconsin School of Medicine and Public Health, Madison, WI 53711, USA","institution_ids":["https://openalex.org/I135310074"]},{"raw_affiliation_string":"Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA","institution_ids":["https://openalex.org/I135310074"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11086","display_name":"Parasitic Infections and Diagnostics","score":0.9872999787330627,"subfield":{"id":"https://openalex.org/subfields/2405","display_name":"Parasitology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T11086","display_name":"Parasitic Infections and Diagnostics","score":0.9872999787330627,"subfield":{"id":"https://openalex.org/subfields/2405","display_name":"Parasitology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10976","display_name":"Viral gastroenteritis research and epidemiology","score":0.007799999788403511,"subfield":{"id":"https://openalex.org/subfields/2725","display_name":"Infectious Diseases"},"field":{"id":"https://openalex.org/fields/27","display_name":"Medicine"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}},{"id":"https://openalex.org/T11331","display_name":"Fecal contamination and water quality","score":0.0007999999797903001,"subfield":{"id":"https://openalex.org/subfields/2312","display_name":"Water Science and Technology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cyclospora-cayetanensis","display_name":"Cyclospora cayetanensis","score":1.0},{"id":"https://openalex.org/keywords/cyclosporiasis","display_name":"cyclosporiasis","score":0.9909999966621399},{"id":"https://openalex.org/keywords/parasite-detection","display_name":"parasite detection","score":0.4909999966621399},{"id":"https://openalex.org/keywords/ribosomal-rna","display_name":"ribosomal RNA","score":0.6959999799728394},{"id":"https://openalex.org/keywords/foodborne-disease-surveillance","display_name":"foodborne disease surveillance","score":0.703000009059906},{"id":"https://openalex.org/keywords/sewersheds","display_name":"sewersheds","score":0.7239999771118164},{"id":"https://openalex.org/keywords/long-term-monitoring","display_name":"long-term monitoring","score":0.3269999921321869}],"concepts":[{"id":"https://openalex.org/C2776152004","wikidata":"https://www.wikidata.org/wiki/Q3008600","display_name":"Cyclospora cayetanensis","level":4,"score":0.8960999846458435},{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.8149999976158142},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.7738000154495239},{"id":"https://openalex.org/C94061648","wikidata":"https://www.wikidata.org/wiki/Q336191","display_name":"Wastewater","level":2,"score":0.5418999791145325},{"id":"https://openalex.org/C2777134030","wikidata":"https://www.wikidata.org/wiki/Q1154025","display_name":"Cyclospora","level":4,"score":0.4587000012397766},{"id":"https://openalex.org/C71928629","wikidata":"https://www.wikidata.org/wiki/Q804206","display_name":"Parasite hosting","level":2,"score":0.4438000023365021},{"id":"https://openalex.org/C67905577","wikidata":"https://www.wikidata.org/wiki/Q215980","display_name":"Ribosomal RNA","level":3,"score":0.43050000071525574},{"id":"https://openalex.org/C42062724","wikidata":"https://www.wikidata.org/wiki/Q1209205","display_name":"16S ribosomal RNA","level":3,"score":0.4050999879837036},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3968000113964081},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.3749000132083893},{"id":"https://openalex.org/C89423630","wikidata":"https://www.wikidata.org/wiki/Q7193","display_name":"Microbiology","level":1,"score":0.35100001096725464},{"id":"https://openalex.org/C190612196","wikidata":"https://www.wikidata.org/wiki/Q180502","display_name":"Parasitology","level":2,"score":0.34310001134872437},{"id":"https://openalex.org/C125009961","wikidata":"https://www.wikidata.org/wiki/Q2342248","display_name":"Pyrosequencing","level":3,"score":0.3190999925136566},{"id":"https://openalex.org/C2778022156","wikidata":"https://www.wikidata.org/wiki/Q576145","display_name":"Strain (injury)","level":2,"score":0.30169999599456787},{"id":"https://openalex.org/C159047783","wikidata":"https://www.wikidata.org/wiki/Q7215","display_name":"Virology","level":1,"score":0.2759999930858612},{"id":"https://openalex.org/C82157600","wikidata":"https://www.wikidata.org/wiki/Q2671652","display_name":"Diagnostic test","level":2,"score":0.26750001311302185},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.25699999928474426},{"id":"https://openalex.org/C90856448","wikidata":"https://www.wikidata.org/wiki/Q431","display_name":"Zoology","level":1,"score":0.25099998712539673}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.64898/2026.09.18.752766","doi":"https://doi.org/10.64898/2026.09.18.752766","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.18.752766","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/24/2026.09.18.752766.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"}],"best_oa_location":{"id":"doi:10.64898/2026.09.18.752766","doi":"https://doi.org/10.64898/2026.09.18.752766","is_oa":true,"landing_page_url":"https://doi.org/10.64898/2026.09.18.752766","pdf_url":"https://www.biorxiv.org/content/biorxiv/early/2026/09/24/2026.09.18.752766.full.pdf","source":{"id":"https://openalex.org/S4306402567","display_name":"bioRxiv (Cold Spring Harbor Laboratory)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"listed_in":[],"host_organization":"https://openalex.org/I2750212522","host_organization_name":"Cold Spring Harbor Laboratory","host_organization_lineage":["https://openalex.org/I2750212522"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"bioRxiv","raw_type":"posted-content"},"sustainable_development_goals":[{"score":0.9090999960899353,"display_name":"Clean water and sanitation","id":"https://metadata.un.org/sdg/6"},{"score":0.8560000061988831,"display_name":"Good health and well-being","id":"https://metadata.un.org/sdg/3"}],"study_designs":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W7214317316.pdf","grobid_xml":"https://content.openalex.org/works/W7214317316.grobid-xml"},"referenced_works_count":17,"referenced_works":["https://openalex.org/W2000040814","https://openalex.org/W2018860572","https://openalex.org/W2063353315","https://openalex.org/W2939294476","https://openalex.org/W3001172166","https://openalex.org/W3087633867","https://openalex.org/W4312113389","https://openalex.org/W4400004722","https://openalex.org/W4406501642","https://openalex.org/W4409545024","https://openalex.org/W4411226742","https://openalex.org/W4415642589","https://openalex.org/W4417030381","https://openalex.org/W7134109769","https://openalex.org/W7169503532","https://openalex.org/W7169803893","https://openalex.org/W7169863124"],"related_works":["https://openalex.org/W7221463693","https://openalex.org/W4399066952","https://openalex.org/W2786171147","https://openalex.org/W4400004722","https://openalex.org/W3011360748","https://openalex.org/W2018860572","https://openalex.org/W4294162997","https://openalex.org/W3199424260","https://openalex.org/W4213141821","https://openalex.org/W4396545568"],"abstract_inverted_index":{"Abstract":[0],"Cyclosporiasis":[1],"is":[2,30,148],"a":[3,24,27,90],"foodborne":[4],"illness":[5],"caused":[6],"by":[7,18],"the":[8,75,124,132,139],"parasite":[9,35],"Cyclospora":[10,160],"cayetanensis":[11,62,113],".":[12],"Clinical":[13],"surveillance":[14],"often":[15],"lags":[16],"infection":[17],"weeks":[19],"because":[20],"diagnosis":[21],"depends":[22],"on":[23,43,97],"clinician":[25],"ordering":[26],"test":[28],"that":[29,101,149],"not":[31,41],"part":[32],"of":[33,92,123,142],"routine":[34],"panels.":[36],"Wastewater":[37],"metagenomic":[38],"sequencing":[39,181],"does":[40],"depend":[42],"care":[44],"seeking,":[45],"which":[46],"may":[47],"be":[48,167,173],"useful":[49],"for":[50],"early":[51],"detection":[52],"and":[53,66,120],"community":[54],"monitoring.":[55],"We":[56],"designed":[57],"1,670":[58],"31-mers":[59,96],"from":[60,107,153,163],"C.":[61,112],"mature":[63],"ribosomal":[64],"RNA":[65],"retained":[67],"1,464":[68],"without":[69],"an":[70],"exact":[71],"non-target":[72],"match":[73],"in":[74,115,121,134,178],"28":[76],"July":[77],"2025":[78],"NCBI":[79],"core_nt":[80],"release.":[81],"By":[82],"analyzing":[83],"293":[84],"public":[85,105],"wastewater":[86,180],"metagenomes,":[87],"we":[88],"selected":[89],"threshold":[91,102],"24":[93,122],"distinct":[94],"diagnostic":[95],"one":[98],"read.":[99],"Applying":[100],"to":[103,175],"2,333":[104],"runs":[106],"BioProject":[108],"PRJNA1247874":[109],"yielded":[110],"putative":[111],"reads":[114,151],"81":[116],"runs,":[117],"or":[118],"3.5%,":[119],"30":[125],"longitudinally":[126],"sampled":[127],"sewersheds.":[128],"Detections":[129],"rose":[130],"through":[131],"summer":[133],"two":[135],"consecutive":[136],"years,":[137],"matching":[138],"known":[140],"seasonality":[141],"cyclosporiasis.":[143],"The":[144,169],"most":[145],"parsimonious":[146],"explanation":[147],"these":[150],"come":[152],"parasites":[154],"shed":[155],"into":[156],"wastewater,":[157],"although":[158],"undescribed":[159],"species":[161],"absent":[162],"reference":[164],"databases":[165],"cannot":[166],"excluded.":[168],"same":[170],"approach":[171],"can":[172],"applied":[174],"other":[176],"pathogens":[177],"existing":[179],"data.":[182]},"counts_by_year":[],"updated_date":"2026-11-09T13:22:03.289127","created_date":"2026-09-26T00:00:00"}